ArticleScientific reports2015
De novo and comparative transcriptome analysis of cultivated and wild spinach.
Article in Scientific reports, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed.
- Integration of crop modeling and sensing into molecular breeding for nutritional quality and stress tolerance.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Review
- Comparative transcriptome mining for terpenoid biosynthetic pathway genes in wild and cultivated species of Plantago.Protoplasma · 2022Article
- Comparative chloroplast genome analyses of cultivated spinach and two wild progenitors shed light on the phylogenetic relationships and variation.Scientific reports · 2022Article
- Article
- Selection and Validation of Reference Genes for RT-qPCR Analysis inBioMed research international · 2021Article
- Genetic Diversity, Structure, and Selective Sweeps inFrontiers in genetics · 2021Article
- Variability in somatic embryo-forming capacity of spinach.Scientific reports · 2020Article
- Transcriptomic evidence that insulin signalling pathway regulates the ageing of subterranean termite castes.Scientific reports · 2020Article
- Application of cucumber mosaic virus to efficient induction and long-term maintenance of virus-induced gene silencing in spinach.Plant biotechnology (Tokyo, Japan) · 2020Article
- Transcriptome analysis reveals plasticity in gene regulation due to environmental cues in Primula sikkimensis, a high altitude plant species.BMC genomics · 2019Article
- Molecular evidence for recent divergence of X- and Y-linked gene pairs in Spinacia oleracea L.PloS one · 2019Article
- SpinachBase: a central portal for spinach genomics.Database : the journal of biological databases and curation · 2019Article
- Comparative transcriptome analysis of pigeonpea, Cajanus cajan (L.) and one of its wild relatives Cajanus platycarpus (Benth.) Maesen.PloS one · 2019Article
- Article
- Genome-wide transcriptome profiling of transgenic hop (Humulus lupulus L.) constitutively overexpressing HlWRKY1 and HlWDR1 transcription factors.BMC genomics · 2018Article
- Expression Analysis of Oxalate Metabolic Pathway Genes Reveals Oxalate Regulation Patterns in Spinach.Molecules (Basel, Switzerland) · 2018Article
- Detection of betacyanin in red-tube spinach (Spinacia oleracea) and its biofortification by strategic hydroponics.PloS one · 2018Article
- Proteomics and Phosphoproteomics of Heat Stress-Responsive Mechanisms in Spinach.Frontiers in plant science · 2018Article
- The Huperzia selago Shoot Tip Transcriptome Sheds New Light on the Evolution of Leaves.Genome biology and evolution · 2017Article
- Draft genome of spinach and transcriptome diversity of 120 Spinacia accessions.Nature communications · 2017Article
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Authors and funding
13 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Spinach (Spinacia oleracea L.) is an economically important green leafy vegetable crop. In this study, we performed deep transcriptome sequencing for nine spinach accessions: three from cultivated S. oleracea, three from wild S. turkestanica and three from wild S. tetrandra. A total of approximately 100 million high-quality reads were generated, which were de novo assembled into 72,151 unigenes with a total length of 46.5 Mb. By comparing sequences of these unigenes against different protein databases, nearly 60% of them were annotated and 50% could be assigned with Gene Ontology terms. A total of 387 metabolic pathways were predicted from the assembled spinach unigenes. From the transcriptome sequencing data, we were able to identify a total of ~320,000 high-quality single nucleotide polymorphisms (SNPs). Phylogenetic analyses using SNPs as well as gene expression profiles indicated that S. turkestanica was more closely related to the cultivated S. oleracea than S. tetrandra. A large number of genes involved in responses to biotic and abiotic stresses were found to be differentially expressed between the cultivated and wild spinach. Finally, an interactive online database (http://www.spinachbase.org) was developed to allow the research community to efficiently retrieve, query, mine and analyze our transcriptome dataset.
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